Note: Tractography shown in this protocol was performed in DTIStudio using 30 direction diffusion data.

To identify the fornix (FX):

First ROI: Identify the axial slice in which the crus of the fornix is visible. In the color map, this is the most inferior slice in which a bright light blue spot is connected to surrounding green fibers. Select this portion as the first ROI.

Second ROI: Identify the coronal slice in which the cerebral peduncles are most visible. In the color map, this slice is distinguished by the most intense bilateral color change of the corticospinal fibers from blue to violet (marked by arrows). Select fibers inferior to the corpus callosum as the second ROI.

* Be sure to remove all fibers that are clearly not a part of the tract.